TORMES version 1.0


Samples description

Samples Source Country of origin Isolation date
MS0495 Cheese Georgia 03/08/2012
MS0496 Cheese Bolivia 03/08/2012
MS0497 Cheese Moldova 30/08/2012
MS0498 Meat Peru 30/05/2012
MS0499 Cheese Peru 30/05/2012
MS0500 Poultry Eq. Guinea 24/08/2012
MS0501 Poultry Eq. Guinea 24/08/2012
MS0502 Meat Bolivia 16/02/2013
MS0503 Meat Bolivia 16/02/2013
MS0504 Cheese Bolivia 16/02/2013


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Assembly analysis


Field Description
Sample Name of the sample
Reads Total number of reads after quality filtering
AvgReadLen Average read length after quality filtering
Contigs Number of contigs of the draft genome (>200bp)
GenomeLength Length (bp) of the draft genome
AvgContigLen Average contig length (>200bp)
N50 “Length of the smallest contig in the set that contains the fewest (largest) contigs whose combined length represents at least 50% of the assembly” (Miller et al., 2010)
GC GC content (%) of the draft genome
Depth Number of times each nucleotide position in the draft genome has a read that align to that position
Specie Specie identification by Kraken
PercentID Number of reads (%) assigned as that specie by Kraken


Sample Reads AvgReadLen Contigs GenomeLength AvgContigLen N50 GC Depth Specie PercentID
MS0495 585544 260 57 4654989 586740 260416 52.26 32X Salmonella enterica 97.49
MS0496 883916 254 128 4769477 549241 159444 52.15 47X Salmonella enterica 89.89
MS0497 620028 257 106 4649162 438202 112638 52.29 34X Salmonella enterica 97.54
MS0498 670894 260 182 4764643 225116 85841 52.18 36X Salmonella enterica 90.63
MS0499 823008 248 137 4765169 414499 99676 52.16 42X Salmonella enterica 90.51
MS0500 790092 258 79 4655208 438900 163604 52.15 43X Salmonella enterica 96.17
MS0501 664252 261 194 4565709 237772 65903 52.20 37X Salmonella enterica 97.77
MS0502 689924 256 86 4640162 558193 204883 52.17 38X Salmonella enterica 97.46
MS0503 617548 258 87 4637957 408239 196298 52.18 34X Salmonella enterica 97.55
MS0504 540712 263 206 4711346 206250 52159 52.29 30X Salmonella enterica 97.20

Select the parameter

Number of reads

Average number of reads per sample = 688592

Average read length

Average read length per sample = 258 bp

Number of contigs

Average number of contigs per sample = 126

Draft genome length

Average draft genome length per sample = 4681382 bp

Average contig length

Average contig length per sample = 406315 bp

N50

Average N50 per sample = 140086 bp

GC content

Average GC content per sample = 52.203%

Sequencing depth

Average sequencing depth = 37.3X


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Multi-Locus Sequence Typing (MLST)

Further details can be found in mlst web page.

Symbol Meaning
~ novel full length allele similar to match
? partial match to known allele
- allele missing


Scheme ST 1 2 3 4 5 6 7
MS0495 senterica 4 aroC(43) dnaN(41) hemD(16) hisD(13) purE(34) sucA(13) thrA(4)
MS0496 senterica 279 aroC(62) dnaN(95) hemD(54) hisD(96) purE(100) sucA(9) thrA(100)
MS0497 senterica 4 aroC(43) dnaN(41) hemD(16) hisD(13) purE(34) sucA(13) thrA(4)
MS0498 senterica 279 aroC(62) dnaN(95) hemD(54) hisD(96) purE(100) sucA(9) thrA(100)
MS0499 senterica 279 aroC(62) dnaN(95) hemD(54) hisD(96) purE(100) sucA(9) thrA(100)
MS0500 senterica 11 aroC(5) dnaN(2) hemD(3) hisD(7) purE(6) sucA(6) thrA(11)
MS0501 senterica 23 aroC(13) dnaN(11) hemD(16) hisD(15) purE(12) sucA(15) thrA(4)
MS0502 senterica 64 aroC(10) dnaN(14) hemD(15) hisD(31) purE(25) sucA(20) thrA(33)
MS0503 senterica 64 aroC(10) dnaN(14) hemD(15) hisD(31) purE(25) sucA(20) thrA(33)
MS0504 senterica 45 aroC(10) dnaN(7) hemD(21) hisD(14) purE(15) sucA(12) thrA(12)


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Serotyping

Sample Subspecie Serovar Serogroup H1 H2 O Antigen Quality Control
MS0495 enterica Montevideo C1 g,m,[p],s - 6,7,14,[54] PASS
MS0496 enterica I 4,[5],12:d:- B d - 4,[5],12 PASS
MS0497 enterica Montevideo C1 g,m,[p],s - 6,7,14,[54] PASS
MS0498 enterica I 4,[5],12:d:- B d - 4,[5],12 PASS
MS0499 enterica I 4,[5],12:d:- B d - 4,[5],12 PASS
MS0500 enterica Enteritidis D1 g,m - 1,9,12 PASS
MS0501 enterica Oranienburg C1 m,t - 6,7,14 PASS
MS0502 enterica Anatum E1 e,h 1,6 3,{10}{15}{15,34} PASS
MS0503 enterica Anatum E1 e,h 1,6 3,{10}{15}{15,34} PASS
MS0504 enterica Newport C2-C3 e,h 1,2 6,8,20 PASS


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Pangenome analysis

Pangenome genes summary

Genes Description Number
Core genes (99% <= strains <= 100%) 3661
Soft core genes (95% <= strains < 99%) 0
Shell genes (15% <= strains < 95%) 1657
Cloud genes (0% <= strains < 15%) 653
Total genes (0% <= strains <= 100%) 5971

Schematic representation of genes presence (color) or absence (blank) between ssamples:


Pangenome tree based on presence/absence of accesory genes representation

Rectangular (phylogram)

Circular (phylogram)

Rectangular (cladogram)

Circular (cladogram)


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Pangenome tree based on core genome alignment representation

Rectangular (phylogram)

Circular (phylogram)

Rectangular (cladogram)

Circular (cladogram)


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Antibiotic resistance

The search of antibiotic resistance genes was performed by screening of the draft genome against Resfinder (E. Zankari et al., 2012), CARD (A.G. McArthur et al., 2013) and ARG-ANNOT (S.K. Gupta et al., 2014) databases by using Abricate. Any hit with coverage and/or identity below 90% was removed.


Field Description
Contig Contig name where the gene was found
Start Start position of the gene within the contig
End End position of the gene within the contig
Gene Antibiotic resistance gene
Gaps Gaps in subject (draft genome) and query (antibiotic resistance genes)
Coverage Proportion (%) of the gene covered
Identity Proportion (%) of exact nucleotide matches
Accession Accesion number of the antibiotic resistance gene
Product Antibiotic resistance gene product


Select the samples and the database

MS0495
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_1 length_586740 cov_13.404769 416275 416712 aac(6’)-Iaa_1 0/0 100 97.9 NC_003197 aac(6’)-Iaa_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_1 length_586740 cov_13.404769 416275 416712 AAC(6’)-Iy 0/0 100 98.4 AF144880:3542-3980 AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter.
NODE_3 length_453569 cov_16.045675 103355 103819 golS 0/0 100 99.4 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_3 length_453569 cov_16.045675 99551 100777 mdsA 0/0 100 98.5 NC_003197.2:397058-398285 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_3 length_453569 cov_16.045675 96387 99554 mdsB 0/0 100 99.0 NC_003197.2:393894-397062 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58.
NODE_3 length_453569 cov_16.045675 94913 96424 mdsC 0/0 100 98.0 NC_003197.2:392420-393932 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_8 length_225726 cov_13.618757 218721 220145 mdtK 0/0 100 98.6 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_8 length_225726 cov_13.618757 171474 172196 sdiA 0/0 100 98.5 NC_003197.2:2039655-2040378 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_1 length_586740 cov_13.404769 416275 416712 (AGly)Aac6-Iy 0/0 100 98.4 AF144880:3452-3979 (AGly)Aac6-Iy
MS0496
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_1 length_549241 cov_18.519074 12513 12950 aac(6’)-Iaa_1 0/0 100 99.3 NC_003197 aac(6’)-Iaa_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_1 length_549241 cov_18.519074 12513 12950 AAC(6’)-Iaa 0/0 100 99.3 NC_003197:1707358-1707796 AAC(6’)-Iaa is a chromosomal-encoded aminoglycoside acetyltransferase in S. typhimurium
NODE_7 length_200502 cov_23.632664 89748 90212 golS 0/0 100 99.4 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_7 length_200502 cov_23.632664 92789 94015 mdsA 0/0 100 99.3 NC_003197.2:397058-398285 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_7 length_200502 cov_23.632664 94012 97179 mdsB 0/0 100 98.9 NC_003197.2:393894-397062 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58.
NODE_7 length_200502 cov_23.632664 97142 98653 mdsC 0/0 100 98.5 NC_003197.2:392420-393932 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_1 length_549241 cov_18.519074 521782 523206 mdtK 0/0 100 99.0 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_10 length_136467 cov_17.965960 99405 100127 sdiA 0/0 100 98.5 NC_003197.2:2039655-2040378 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_1 length_549241 cov_18.519074 12513 12950 (AGly)Aac6-Iaa 0/0 100 99.3 NC_003197:1707358-1707795 (AGly)Aac6-Iaa
MS0497
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_11 length_115250 cov_14.173189 62380 62817 aac(6’)-Iaa_1 0/0 100 97.9 NC_003197 aac(6’)-Iaa_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_11 length_115250 cov_14.173189 62380 62817 AAC(6’)-Iy 0/0 100 98.4 AF144880:3542-3980 AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter.
NODE_24 length_64776 cov_17.020867 22288 22752 golS 0/0 100 99.4 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_24 length_64776 cov_17.020867 25330 26556 mdsA 0/0 100 98.5 NC_003197.2:397058-398285 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_24 length_64776 cov_17.020867 26553 29720 mdsB 0/0 100 99.0 NC_003197.2:393894-397062 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58.
NODE_24 length_64776 cov_17.020867 29683 31194 mdsC 0/0 100 98.0 NC_003197.2:392420-393932 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_53 length_17197 cov_16.072173 10192 11616 mdtK 0/0 100 98.6 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_12 length_112638 cov_15.741679 75571 76293 sdiA 0/0 100 98.5 NC_003197.2:2039655-2040378 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_11 length_115250 cov_14.173189 62380 62817 (AGly)Aac6-Iy 0/0 100 98.4 AF144880:3452-3979 (AGly)Aac6-Iy
MS0498
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_28 length_65470 cov_13.544236 52426 52863 aac(6’)-Iaa_1 0/0 100 99.3 NC_003197 aac(6’)-Iaa_1
NODE_93 length_2826 cov_1537.663950 1091 1735 qnrB19_1 0/0 100 100.0 EU432277 qnrB19_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_28 length_65470 cov_13.544236 52426 52863 AAC(6’)-Iaa 0/0 100 99.3 NC_003197:1707358-1707796 AAC(6’)-Iaa is a chromosomal-encoded aminoglycoside acetyltransferase in S. typhimurium
NODE_4 length_153648 cov_17.519955 89708 90172 golS 0/0 100 99.4 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_4 length_153648 cov_17.519955 92749 93975 mdsA 0/0 100 99.3 NC_003197.2:397058-398285 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_4 length_153648 cov_17.519955 93972 97139 mdsB 0/0 100 98.9 NC_003197.2:393894-397062 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58.
NODE_4 length_153648 cov_17.519955 97102 98613 mdsC 0/0 100 98.5 NC_003197.2:392420-393932 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_16 length_93408 cov_15.297467 71709 73133 mdtK 0/0 100 99.0 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_93 length_2826 cov_1537.663950 1091 1771 QnrB5 0/0 100 99.1 DQ303919:1-682 QnrB5 is a plasmid-mediated quinolone resistance protein found in Salmonella enterica
NODE_10 length_115205 cov_14.347955 78159 78881 sdiA 0/0 100 98.5 NC_003197.2:2039655-2040378 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_28 length_65470 cov_13.544236 52426 52863 (AGly)Aac6-Iaa 0/0 100 99.3 NC_003197:1707358-1707795 (AGly)Aac6-Iaa
NODE_93 length_2826 cov_1537.663950 1091 1771 (Flq)QnrB5 0/0 100 99.1 DQ303919:1-681 (Flq)QnrB5
MS0499
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_4 length_247095 cov_15.109630 158801 159238 aac(6’)-Iaa_1 0/0 100 99.3 NC_003197 aac(6’)-Iaa_1
NODE_70 length_2826 cov_1536.375324 1091 1735 qnrB19_1 0/0 100 100.0 EU432277 qnrB19_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_4 length_247095 cov_15.109630 158801 159238 AAC(6’)-Iaa 0/0 100 99.3 NC_003197:1707358-1707796 AAC(6’)-Iaa is a chromosomal-encoded aminoglycoside acetyltransferase in S. typhimurium
NODE_2 length_403701 cov_18.990123 64431 64895 golS 0/0 100 99.4 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_2 length_403701 cov_18.990123 60628 61854 mdsA 0/0 100 99.3 NC_003197.2:397058-398285 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_2 length_403701 cov_18.990123 57464 60631 mdsB 0/0 100 98.9 NC_003197.2:393894-397062 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58.
NODE_2 length_403701 cov_18.990123 55990 57501 mdsC 0/0 100 98.5 NC_003197.2:392420-393932 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_5 length_236778 cov_16.771660 25956 27380 mdtK 0/0 100 99.0 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_70 length_2826 cov_1536.375324 1091 1771 QnrB5 0/0 100 99.1 DQ303919:1-682 QnrB5 is a plasmid-mediated quinolone resistance protein found in Salmonella enterica
NODE_7 length_162718 cov_15.360813 14409 15131 sdiA 0/0 100 98.5 NC_003197.2:2039655-2040378 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_4 length_247095 cov_15.109630 158801 159238 (AGly)Aac6-Iaa 0/0 100 99.3 NC_003197:1707358-1707795 (AGly)Aac6-Iaa
NODE_70 length_2826 cov_1536.375324 1091 1771 (Flq)QnrB5 0/0 100 99.1 DQ303919:1-681 (Flq)QnrB5
MS0500
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_343106 cov_18.408745 51079 51516 aac(6’)-Iaa_1 0/0 100 96.3 NC_003197 aac(6’)-Iaa_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_343106 cov_18.408745 51079 51516 AAC(6’)-Iy 0/0 100 96.8 AF144880:3542-3980 AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter.
NODE_1 length_438900 cov_21.348599 80683 81147 golS 0/0 100 99.6 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_1 length_438900 cov_21.348599 76880 78106 mdsA 0/0 100 98.9 NC_003197.2:397058-398285 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_1 length_438900 cov_21.348599 73716 76883 mdsB 0/0 100 99.5 NC_003197.2:393894-397062 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58.
NODE_1 length_438900 cov_21.348599 72242 73753 mdsC 0/0 100 98.3 NC_003197.2:392420-393932 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_23 length_65495 cov_19.942036 45261 46685 mdtK 0/0 100 98.8 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_9 length_172957 cov_18.373234 128452 129174 sdiA 0/0 100 99.3 NC_003197.2:2039655-2040378 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_343106 cov_18.408745 51079 51516 (AGly)Aac6-Iy 0/0 100 96.8 AF144880:3452-3979 (AGly)Aac6-Iy
MS0501
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_51 length_31448 cov_14.845822 15446 15883 aac(6’)-Iaa_1 0/0 100 97.9 NC_003197 aac(6’)-Iaa_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_51 length_31448 cov_14.845822 15446 15883 AAC(6’)-Iy 0/0 100 98.4 AF144880:3542-3980 AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter.
NODE_20 length_66119 cov_19.653200 23621 24085 golS 0/0 100 99.4 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_20 length_66119 cov_19.653200 26662 27888 mdsA 0/0 100 98.9 NC_003197.2:397058-398285 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_20 length_66119 cov_19.653200 27885 31052 mdsB 0/0 100 99.0 NC_003197.2:393894-397062 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58.
NODE_20 length_66119 cov_19.653200 31015 32526 mdsC 0/0 100 98.4 NC_003197.2:392420-393932 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_17 length_80241 cov_17.801158 7422 8846 mdtK 0/0 100 98.7 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_28 length_54018 cov_17.535414 17111 17833 sdiA 0/0 100 98.8 NC_003197.2:2039655-2040378 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_51 length_31448 cov_14.845822 15446 15883 (AGly)Aac6-Iy 0/0 100 98.4 AF144880:3452-3979 (AGly)Aac6-Iy
MS0502
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_1 length_558193 cov_14.693909 474166 474603 aac(6’)-Iaa_1 0/0 100 99.1 NC_003197 aac(6’)-Iaa_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_1 length_558193 cov_14.693909 474166 474603 AAC(6’)-Iy 0/0 100 99.5 AF144880:3542-3980 AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter.
NODE_8 length_198416 cov_20.162954 108234 108698 golS 0/0 100 98.9 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_8 length_198416 cov_20.162954 104431 105657 mdsA 0/0 100 98.7 NC_003197.2:397058-398285 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_8 length_198416 cov_20.162954 101267 104434 mdsB 0/0 100 99.1 NC_003197.2:393894-397062 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58.
NODE_8 length_198416 cov_20.162954 99793 101304 mdsC 0/0 100 98.6 NC_003197.2:392420-393932 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_2 length_395533 cov_15.228525 72990 74414 mdtK 0/0 100 99.1 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_2 length_395533 cov_15.228525 142494 143216 sdiA 0/0 100 99.0 NC_003197.2:2039655-2040378 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_1 length_558193 cov_14.693909 474166 474603 (AGly)Aac6-Iy 0/0 100 99.5 AF144880:3452-3979 (AGly)Aac6-Iy
MS0503
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_403085 cov_13.500407 175360 175797 aac(6’)-Iaa_1 0/0 100 99.1 NC_003197 aac(6’)-Iaa_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_403085 cov_13.500407 175360 175797 AAC(6’)-Iy 0/0 100 99.5 AF144880:3542-3980 AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter.
NODE_7 length_198401 cov_17.789685 108234 108698 golS 0/0 100 98.9 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_7 length_198401 cov_17.789685 104431 105657 mdsA 0/0 100 98.7 NC_003197.2:397058-398285 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_7 length_198401 cov_17.789685 101267 104434 mdsB 0/0 100 99.1 NC_003197.2:393894-397062 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58.
NODE_7 length_198401 cov_17.789685 99793 101304 mdsC 0/0 100 98.6 NC_003197.2:392420-393932 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_28 length_36756 cov_14.880177 10551 11975 mdtK 0/0 100 99.1 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_8 length_196298 cov_14.571940 36338 37060 sdiA 0/0 100 99.0 NC_003197.2:2039655-2040378 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_403085 cov_13.500407 175360 175797 (AGly)Aac6-Iy 0/0 100 99.5 AF144880:3452-3979 (AGly)Aac6-Iy
MS0504
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_62 length_27019 cov_12.734828 14103 14540 aac(6’)-Iaa_1 0/0 100 99.5 NC_003197 aac(6’)-Iaa_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_62 length_27019 cov_12.734828 14103 14540 AAC(6’)-Iy 0/0 100 100.0 AF144880:3542-3980 AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter.
NODE_31 length_46760 cov_15.326486 22637 23101 golS 0/0 100 99.4 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_31 length_46760 cov_15.326486 18834 20060 mdsA 0/0 100 98.9 NC_003197.2:397058-398285 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_31 length_46760 cov_15.326486 15670 18837 mdsB 0/0 100 99.6 NC_003197.2:393894-397062 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58.
NODE_31 length_46760 cov_15.326486 14196 15707 mdsC 0/0 100 99.5 NC_003197.2:392420-393932 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_46 length_34538 cov_13.913167 25951 27375 mdtK 0/0 100 99.0 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_34 length_43892 cov_14.254267 17073 17795 sdiA 0/0 100 98.8 NC_003197.2:2039655-2040378 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_62 length_27019 cov_12.734828 14103 14540 (AGly)Aac6-Iy 0/0 100 100 AF144880:3452-3979 (AGly)Aac6-Iy


Summary figures

Presence/Absence of antibiotic resistance genes (coverage and identity > 90%) on each sample.

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Resfinder
CARD
ARG-ANNOT


Antibiotic resistance genes (ResFinder) count


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Antibiotic resistance due to point mutations

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MS0495
Mutation Nucleotide change Amino acid change Resistance PMID
parC p.T57S ACC -> AGC T -> S Nalidixic acid,Ciprofloxacin 15388468
MS0496
Mutation Nucleotide change Amino acid change Resistance PMID
parC p.T57S ACC -> AGC T -> S Nalidixic acid,Ciprofloxacin 15388468
MS0497
Mutation Nucleotide change Amino acid change Resistance PMID
parC p.T57S ACC -> AGC T -> S Nalidixic acid,Ciprofloxacin 15388468
MS0498
Mutation Nucleotide change Amino acid change Resistance PMID
parC p.T57S ACC -> AGC T -> S Nalidixic acid,Ciprofloxacin 15388468
MS0499
Mutation Nucleotide change Amino acid change Resistance PMID
parC p.T57S ACC -> AGC T -> S Nalidixic acid,Ciprofloxacin 15388468
MS0500
## [1] "No known mutations from PointFinder database were found. For unknown mutations check point_mutations directory"
MS0501
Mutation Nucleotide change Amino acid change Resistance PMID
parC p.T57S ACC -> AGC T -> S Nalidixic acid,Ciprofloxacin 15388468
MS0502
Mutation Nucleotide change Amino acid change Resistance PMID
parC p.T57S ACC -> AGC T -> S Nalidixic acid,Ciprofloxacin 15388468
MS0503
Mutation Nucleotide change Amino acid change Resistance PMID
parC p.T57S ACC -> AGC T -> S Nalidixic acid,Ciprofloxacin 15388468
MS0504
Mutation Nucleotide change Amino acid change Resistance PMID
parC p.T57S ACC -> AGC T -> S Nalidixic acid,Ciprofloxacin 15388468


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Virulence genes

The search of virulence genes was performed by screening of the draft genome against Virulence Factors Data Base (VFDB, L. Chen et al., 2005) by using Abricate. Any hit with coverage and/or identity below 90% was removed. To see description of each field, click here.


Select the sample

MS0495
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_1 length_586740 cov_13.404769 39429 40238 cdtB 0/0 100.0 99.9 NP_456275 (cdtB) cytolethal distending toxin B [CdtB (VF0407)] [Salmonella enterica subsp. enterica serovar Typhi str. CT18]
NODE_10 length_155084 cov_14.356744 70219 70674 csgA 0/0 100.0 98.9 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_155084 cov_14.356744 70716 71171 csgB 0/0 100.0 99.3 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_155084 cov_14.356744 69831 70157 csgC 0/0 100.0 99.7 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_155084 cov_14.356744 71926 72576 csgD 0/0 100.0 99.2 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_155084 cov_14.356744 72581 72976 csgE 0/0 100.0 99.5 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_155084 cov_14.356744 73003 73419 csgF 0/0 100.0 99.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_155084 cov_14.356744 73446 74279 csgG 0/0 100.0 99.3 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_453569 cov_16.045675 303201 303893 fimC 0/0 100.0 98.7 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_453569 cov_16.045675 303924 306536 fimD 0/0 100.0 98.8 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_453569 cov_16.045675 307568 308085 fimF 0/0 99.8 98.5 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_453569 cov_16.045675 306551 307558 fimH 0/0 100.0 98.4 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_453569 cov_16.045675 302624 303157 fimI 0/0 100.0 98.1 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 341850 343907 invA 0/0 100.0 99.1 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 343931 344338 invB 0/0 100.0 99.3 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 344335 345630 invC 0/0 100.0 99.1 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 340707 341825 invE 0/0 100.0 99.2 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 338375 339025 invF 0/0 100.0 98.8 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 339022 340710 invG 0/0 100.0 98.9 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 337475 337918 invH 0/0 100.0 98.9 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 345608 346051 invI 0/0 100.0 99.5 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 346051 347061 invJ 0/0 100.0 99.4 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_17 length_95766 cov_20.143791 48213 50939 mgtB 0/0 100.0 98.8 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_17 length_95766 cov_20.143791 47299 47994 mgtC 0/0 100.0 98.4 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_140248 cov_16.620656 39623 40519 mig-14 0/0 100.0 97.2 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_17 length_95766 cov_20.143791 54794 57646 misL 1/15 99.5 97.7 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 367273 367872 orgA 0/0 100.0 99.2 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 367829 368519 orgB 1/10 100.0 97.8 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 368516 368968 orgC 0/0 100.0 98.5 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_155084 cov_14.356744 124683 125558 pipB 0/0 100.0 98.9 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 364777 365955 prgH 0/0 100.0 99.2 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 365980 366222 prgI 0/0 100.0 100.0 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 366241 366546 prgJ 0/0 100.0 99.7 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 366543 367301 prgK 0/0 100.0 99.6 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_243417 cov_15.331238 130654 137964 ratB 5/7 100.0 91.0 NP_461449 (ratB) putative outer membrane protein [RatB (VF0399)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 350912 351409 sicA 0/0 100.0 99.4 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 358217 358609 sicP 0/0 100.0 99.2 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 12535 13545 sifA 0/0 100.0 96.2 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 401098 402048 sifB 0/0 100.0 95.6 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_243417 cov_15.331238 144839 147031 sinH 0/0 100.0 95.9 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 355562 357619 sipA/sspA 0/0 100.0 98.3 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 351412 353193 sipB/sspB 0/0 100.0 99.5 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 353221 354450 sipC/sspC 0/0 100.0 99.4 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 354521 355543 sipD 3/11 99.0 90.4 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_260416 cov_14.461249 180313 182580 slrP 2/30 98.7 94.7 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_16 length_126356 cov_13.726386 45554 47902 sopA 0/0 100.0 97.4 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_155084 cov_14.356744 122091 123776 sopB/sigD 0/0 100.0 98.4 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 293683 294636 sopD 0/0 100.0 97.9 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_260416 cov_14.461249 42295 43254 sopD2 0/0 100.0 93.2 NP_459947 (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_8 length_225726 cov_13.618757 81782 82504 sopE2 0/0 100.0 97.0 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 347061 347972 spaO 0/0 100.0 99.5 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 347962 348636 spaP 0/0 100.0 98.8 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 348662 348922 spaQ 0/0 100.0 99.6 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 348926 349717 spaR 0/0 100.0 99.0 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 349704 350774 spaS 0/0 100.0 99.2 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 184268 184669 spiC/ssaB 0/0 100.0 99.2 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_411544 cov_18.586028 358596 360227 sptP 0/0 100.0 97.5 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 184671 186164 ssaC 0/0 100.0 98.5 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 186145 187356 ssaD 0/0 100.0 98.6 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 187364 187606 ssaE 0/0 100.0 98.8 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 193806 194021 ssaG 0/0 100.0 100.0 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 194062 194289 ssaH 0/0 100.0 99.6 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 194301 194549 ssaI 0/0 100.0 98.0 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 194546 195295 ssaJ 0/0 100.0 98.1 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 195858 196532 ssaK 0/0 100.0 98.8 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 196498 197514 ssaL 0/0 100.0 98.9 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 197572 197940 ssaM 0/0 100.0 97.3 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 199960 201267 ssaN 1/6 100.0 98.5 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 201270 201647 ssaO 0/0 100.0 98.9 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 201628 202002 ssaP 0/0 100.0 100.0 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 201983 202951 ssaQ 0/0 100.0 98.3 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 203019 203666 ssaR 0/0 100.0 98.9 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 203663 203929 ssaS 0/0 100.0 99.6 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 203930 204709 ssaT 0/0 100.0 97.6 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 204706 205764 ssaU 0/0 100.0 98.2 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 197925 199970 ssaV 0/0 100.0 98.9 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 188790 189263 sscA 0/0 100.0 97.3 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 191794 192228 sscB 0/0 100.0 99.5 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 187870 188196 sseA 0/0 100.0 99.4 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 188203 188793 sseB 0/0 100.0 97.5 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 189266 190720 sseC 0/0 100.0 97.2 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 190736 191323 sseD 0/0 100.0 96.8 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 191326 191742 sseE 0/0 100.0 99.3 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 192244 193026 sseF 0/0 100.0 98.1 NP_460369 (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 193023 193712 sseG 0/0 100.0 97.7 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 430211 431437 sseJ 0/0 100.0 96.7 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_22 length_33332 cov_19.549857 14025 15035 sseK1 0/0 100.0 98.9 NP_463026 (sseK1) type III secretion system effector SseK1 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_154126 cov_14.681829 41646 42599 sseL 0/0 100.0 96.5 NP_461229 (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 378449 379081 steA 0/0 100.0 94.2 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 428539 428940 steB 0/0 100.0 95.5 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_586740 cov_13.404769 507531 508904 steC 0/0 100.0 94.9 NP_460656 (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
MS0496
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_336019 cov_22.692062 147148 148056 avrA 0/0 100.0 99.5 NP_461786 (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 491703 492158 csgA 0/0 100.0 98.7 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 492200 492655 csgB 0/0 100.0 100.0 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 491315 491641 csgC 0/0 100.0 100.0 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 493410 494060 csgD 0/0 100.0 99.2 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 494065 494460 csgE 0/0 100.0 100.0 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 494487 494903 csgF 0/0 100.0 99.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 494930 495763 csgG 0/0 100.0 99.6 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_249784 cov_21.237530 134720 135412 fimC 0/0 100.0 98.7 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_249784 cov_21.237530 132077 134689 fimD 0/0 100.0 98.9 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_249784 cov_21.237530 130527 131045 fimF 0/0 100.0 98.3 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_249784 cov_21.237530 131055 132062 fimH 0/0 100.0 97.9 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_249784 cov_21.237530 135456 135989 fimI 0/0 100.0 99.1 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 175660 177717 invA 0/0 100.0 99.6 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 175229 175636 invB 0/0 100.0 99.3 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 173937 175232 invC 0/0 100.0 99.4 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 177742 178860 invE 0/0 100.0 99.7 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 180542 181192 invF 0/0 100.0 99.7 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 178857 180545 invG 0/0 100.0 99.5 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 181650 182093 invH 0/0 100.0 99.3 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 173516 173959 invI 0/0 100.0 99.3 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 172506 173516 invJ 0/0 100.0 99.3 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_221591 cov_23.714053 102 638 lpfA 0/0 100.0 96.8 NP_462541 (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_221591 cov_23.714053 722 1420 lpfB 0/0 100.0 98.7 NP_462540 (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_221591 cov_23.714053 1443 3971 lpfC 0/0 100.0 98.5 NP_462539 (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_221591 cov_23.714053 5059 5586 lpfE 0/0 100.0 99.2 NP_462537 (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_107805 cov_25.914811 62403 65129 mgtB 0/0 100.0 98.8 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_107805 cov_25.914811 65349 66044 mgtC 0/0 100.0 99.0 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 66759 67655 mig-14 0/0 100.0 97.7 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_107805 cov_25.914811 55623 58490 misL 3/30 99.5 97.4 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 151686 152285 orgA 0/0 100.0 99.5 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 151039 151729 orgB 1/10 100.0 97.5 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 150590 151042 orgC 0/0 100.0 98.0 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_128252 cov_19.083934 21371 22246 pipB 0/0 100.0 98.7 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 63966 65018 pipB2 0/0 100.0 93.9 NP_461706 (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 153603 154781 prgH 0/0 100.0 99.3 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 153336 153578 prgI 0/0 100.0 98.8 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 153012 153317 prgJ 0/0 100.0 99.7 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 152257 153015 prgK 0/0 100.0 99.5 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 168158 168655 sicA 0/0 100.0 99.4 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 160949 161341 sicP 0/0 100.0 99.5 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 412931 413941 sifA 0/0 100.0 96.1 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 27176 28126 sifB 0/0 100.0 95.7 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_242135 cov_21.392636 193 2385 sinH 0/0 100.0 97.6 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 161939 163996 sipA/sspA 0/0 100.0 99.2 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 166374 168155 sipB/sspB 0/0 100.0 99.5 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 165117 166346 sipC/sspC 0/0 100.0 99.7 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 164015 165046 sipD 0/0 100.0 98.7 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_59659 cov_19.118558 34575 36842 slrP 1/30 98.7 95.3 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_30 length_50067 cov_19.652283 24820 27168 sopA 0/0 100.0 98.1 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_128252 cov_19.083934 18347 20032 sopB/sigD 0/0 100.0 97.6 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 225310 226263 sopD 0/0 100.0 98.2 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_128252 cov_19.083934 97838 98797 sopD2 0/0 100.0 92.6 NP_459947 (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_136467 cov_17.965960 20161 20883 sopE2 0/0 100.0 96.7 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 171595 172506 spaO 0/0 100.0 99.5 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 170931 171605 spaP 0/0 100.0 99.4 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 170645 170905 spaQ 0/0 100.0 99.2 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 169850 170641 spaR 0/0 100.0 99.6 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 168793 169863 spaS 0/0 100.0 99.9 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 242392 242793 spiC/ssaB 0/0 100.0 99.8 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_336019 cov_22.692062 159331 160962 sptP 0/0 100.0 98.4 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 240897 242390 ssaC 0/0 100.0 98.7 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 239705 240916 ssaD 0/0 100.0 98.7 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 239455 239697 ssaE 0/0 100.0 98.8 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 233042 233257 ssaG 0/0 100.0 99.1 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 232774 233001 ssaH 0/0 100.0 99.1 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 232514 232762 ssaI 0/0 100.0 98.4 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 231768 232517 ssaJ 0/0 100.0 98.5 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 230531 231205 ssaK 0/0 100.0 98.8 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 229549 230565 ssaL 0/0 100.0 99.0 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 229123 229491 ssaM 0/0 100.0 98.6 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 225802 227103 ssaN 0/0 100.0 98.5 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 225422 225799 ssaO 0/0 100.0 99.2 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 225067 225441 ssaP 0/0 100.0 98.7 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 224118 225086 ssaQ 0/0 100.0 98.6 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 223403 224050 ssaR 0/0 100.0 99.5 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 223140 223406 ssaS 0/0 100.0 100.0 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 222360 223139 ssaT 0/0 100.0 98.1 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 221305 222363 ssaU 0/0 100.0 97.7 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 227093 229138 ssaV 0/0 100.0 99.1 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 237799 238272 sscA 0/0 100.0 97.7 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 234834 235268 sscB 0/0 100.0 99.8 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 238866 239192 sseA 0/0 100.0 98.8 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 238269 238859 sseB 0/0 100.0 96.6 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 236342 237796 sseC 0/0 100.0 95.7 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 235739 236326 sseD 0/0 100.0 95.4 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 235320 235736 sseE 0/0 100.0 98.3 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 234036 234818 sseF 0/0 100.0 97.8 NP_460369 (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 233350 234039 sseG 0/0 100.0 97.7 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_18 length_74778 cov_16.215885 73074 74300 sseJ 0/0 100.0 96.4 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_112834 cov_20.092967 3672 4718 sseK2 0/0 100.0 99.1 NP_461081 (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_19 length_74321 cov_19.222417 32081 33034 sseL 0/0 100.0 94.8 NP_461229 (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 50167 50799 steA 0/0 100.0 97.5 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_549241 cov_18.519074 285 686 steB 0/0 100.0 97.0 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_18 length_74778 cov_16.215885 2 1357 steC 0/0 98.7 95.8 NP_460656 (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
MS0497
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_4 length_224730 cov_14.909017 5382 6191 cdtB 0/0 100.0 99.9 NP_456275 (cdtB) cytolethal distending toxin B [CdtB (VF0407)] [Salmonella enterica subsp. enterica serovar Typhi str. CT18]
NODE_5 length_184030 cov_15.079901 84484 84939 csgA 0/0 100.0 98.9 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_184030 cov_15.079901 83987 84442 csgB 0/0 100.0 99.3 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_184030 cov_15.079901 85001 85327 csgC 0/0 100.0 99.7 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_184030 cov_15.079901 82582 83232 csgD 0/0 100.0 99.2 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_184030 cov_15.079901 82182 82577 csgE 0/0 100.0 99.5 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_184030 cov_15.079901 81739 82155 csgF 0/0 100.0 99.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_184030 cov_15.079901 80879 81712 csgG 0/0 100.0 99.3 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_63140 cov_16.183581 47497 48189 fimC 0/0 100.0 98.7 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_63140 cov_16.183581 48220 50832 fimD 0/0 100.0 98.8 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_63140 cov_16.183581 51864 52381 fimF 0/0 99.8 98.5 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_63140 cov_16.183581 50847 51854 fimH 0/0 100.0 98.4 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_63140 cov_16.183581 46920 47453 fimI 0/0 100.0 98.1 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 61127 63184 invA 0/0 100.0 99.1 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 63208 63615 invB 0/0 100.0 99.3 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 63612 64907 invC 0/0 100.0 99.1 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 59984 61102 invE 0/0 100.0 99.2 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 57652 58302 invF 0/0 100.0 98.8 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 58299 59987 invG 0/0 100.0 98.9 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 56752 57195 invH 0/0 100.0 98.9 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 64885 65328 invI 0/0 100.0 99.5 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 65328 66338 invJ 0/0 100.0 99.4 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_53044 cov_20.067672 1896 4622 mgtB 0/0 100.0 98.8 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_53044 cov_20.067672 4841 5536 mgtC 0/0 100.0 98.4 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_30 length_57535 cov_17.423356 39623 40519 mig-14 0/0 100.0 97.2 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_38 length_38948 cov_20.210633 1847 4699 misL 1/15 99.5 97.7 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 86550 87149 orgA 0/0 100.0 99.2 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 87106 87796 orgB 1/10 100.0 97.8 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 87793 88245 orgC 0/0 100.0 98.5 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_184030 cov_15.079901 29600 30475 pipB 0/0 100.0 98.9 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 84054 85232 prgH 0/0 100.0 99.2 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 85257 85499 prgI 0/0 100.0 100.0 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 85518 85823 prgJ 0/0 100.0 99.7 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 85820 86578 prgK 0/0 100.0 99.6 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_25 length_63246 cov_15.613888 55531 62841 ratB 5/7 100.0 91.0 NP_461449 (ratB) putative outer membrane protein [RatB (VF0399)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 70189 70686 sicA 0/0 100.0 99.4 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 77494 77886 sicP 0/0 100.0 99.2 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_184030 cov_15.079901 167717 168727 sifA 0/0 100.0 96.2 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_115250 cov_14.173189 77044 77994 sifB 0/0 100.0 95.6 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_25 length_63246 cov_15.613888 46464 48656 sinH 0/0 100.0 95.9 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 74839 76896 sipA/sspA 0/0 100.0 98.3 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 70689 72470 sipB/sspB 0/0 100.0 99.5 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 72498 73727 sipC/sspC 0/0 100.0 99.4 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 73798 74820 sipD 3/11 99.0 90.4 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_181675 cov_14.603273 37874 40141 slrP 2/30 98.7 94.7 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_23 length_65103 cov_15.790677 45554 47902 sopA 0/0 100.0 97.4 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_184030 cov_15.079901 31382 33067 sopB/sigD 0/0 100.0 98.4 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 12960 13913 sopD 0/0 100.0 97.9 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_181675 cov_14.603273 177200 178159 sopD2 0/0 100.0 93.2 NP_459947 (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_71 length_1199 cov_12.878731 73 795 sopE2 0/0 100.0 97.0 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 66338 67249 spaO 0/0 100.0 99.5 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 67239 67913 spaP 0/0 100.0 98.8 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 67939 68199 spaQ 0/0 100.0 99.6 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 68203 68994 spaR 0/0 100.0 99.0 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 68981 70051 spaS 0/0 100.0 99.2 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 150221 150622 spiC/ssaB 0/0 100.0 99.2 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_130821 cov_18.888556 77873 79504 sptP 0/0 100.0 97.5 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 150624 152117 ssaC 0/0 100.0 98.5 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 152098 153309 ssaD 0/0 100.0 98.6 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 153317 153559 ssaE 0/0 100.0 98.8 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 159759 159974 ssaG 0/0 100.0 100.0 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 160015 160242 ssaH 0/0 100.0 99.6 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 160254 160502 ssaI 0/0 100.0 98.0 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 160499 161248 ssaJ 0/0 100.0 98.1 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 161811 162485 ssaK 0/0 100.0 98.8 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 162451 163467 ssaL 0/0 100.0 98.9 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 163525 163893 ssaM 0/0 100.0 97.3 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 165913 167220 ssaN 1/6 100.0 98.5 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 167223 167600 ssaO 0/0 100.0 98.9 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 167581 167955 ssaP 0/0 100.0 100.0 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 167936 168904 ssaQ 0/0 100.0 98.3 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 168972 169619 ssaR 0/0 100.0 98.9 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 169616 169882 ssaS 0/0 100.0 99.6 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 169883 170662 ssaT 0/0 100.0 97.6 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 170659 171717 ssaU 0/0 100.0 98.2 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 163878 165923 ssaV 0/0 100.0 98.9 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 154743 155216 sscA 0/0 100.0 97.3 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 157747 158181 sscB 0/0 100.0 99.5 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 153823 154149 sseA 0/0 100.0 99.4 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 154156 154746 sseB 0/0 100.0 97.5 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 155219 156673 sseC 0/0 100.0 97.2 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 156689 157276 sseD 0/0 100.0 96.8 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 157279 157695 sseE 0/0 100.0 99.3 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 158197 158979 sseF 0/0 100.0 98.1 NP_460369 (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.909017 158976 159665 sseG 0/0 100.0 97.7 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_115250 cov_14.173189 47655 48881 sseJ 0/0 100.0 96.7 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_51 length_19293 cov_15.990817 141 1151 sseK1 0/0 100.0 98.9 NP_463026 (sseK1) type III secretion system effector SseK1 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_29 length_59399 cov_15.165677 43063 44016 sseL 0/0 100.0 96.5 NP_461229 (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_115250 cov_14.173189 100011 100643 steA 0/0 100.0 94.2 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_115250 cov_14.173189 50152 50553 steB 0/0 100.0 95.5 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_43 length_29783 cov_13.654202 28376 29749 steC 0/0 100.0 94.9 NP_460656 (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
MS0498
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_36 length_43137 cov_17.819879 2263 3171 avrA 0/0 100.0 99.5 NP_461786 (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_97993 cov_15.505671 1063 1518 csgA 0/0 100.0 98.7 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_97993 cov_15.505671 566 1021 csgB 0/0 100.0 100.0 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_97993 cov_15.505671 1580 1906 csgC 0/0 100.0 100.0 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_82 length_8172 cov_16.593536 7428 8078 csgD 0/0 100.0 99.2 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_82 length_8172 cov_16.593536 7028 7423 csgE 0/0 100.0 100.0 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_82 length_8172 cov_16.593536 6585 7001 csgF 0/0 100.0 99.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_82 length_8172 cov_16.593536 5725 6558 csgG 0/0 100.0 99.6 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_51 length_28857 cov_15.681761 5221 5913 fimC 0/0 100.0 98.7 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_51 length_28857 cov_15.681761 2578 5190 fimD 0/0 100.0 98.9 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_51 length_28857 cov_15.681761 1028 1546 fimF 0/0 100.0 98.3 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_51 length_28857 cov_15.681761 1556 2563 fimH 0/0 100.0 97.9 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_51 length_28857 cov_15.681761 5957 6490 fimI 0/0 100.0 99.1 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 4421 6478 invA 0/0 100.0 99.6 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 6502 6909 invB 0/0 100.0 99.3 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 6906 8201 invC 0/0 100.0 99.4 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 3278 4396 invE 0/0 100.0 99.7 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 946 1596 invF 0/0 100.0 99.7 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 1593 3281 invG 0/0 100.0 99.5 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 45 488 invH 0/0 100.0 99.3 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 8179 8622 invI 0/0 100.0 99.3 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 8622 9632 invJ 0/0 100.0 99.3 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_221410 cov_19.526769 220789 221325 lpfA 0/0 100.0 96.8 NP_462541 (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_221410 cov_19.526769 220007 220705 lpfB 0/0 100.0 98.7 NP_462540 (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_221410 cov_19.526769 217456 219984 lpfC 0/0 100.0 98.5 NP_462539 (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_221410 cov_19.526769 215841 216368 lpfE 0/0 100.0 99.2 NP_462537 (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_107697 cov_21.088631 42677 45403 mgtB 0/0 100.0 98.8 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_107697 cov_21.088631 41762 42457 mgtC 0/0 100.0 99.0 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_30 length_59122 cov_17.108602 17240 18136 mig-14 0/0 100.0 97.7 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_107697 cov_21.088631 49316 52183 misL 3/30 99.5 97.4 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 29853 30452 orgA 0/0 100.0 99.5 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 30409 31099 orgB 1/10 100.0 97.5 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 31096 31548 orgC 0/0 100.0 98.0 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_37 length_40142 cov_14.949894 27 902 pipB 0/0 100.0 98.7 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_30 length_59122 cov_17.108602 19877 20929 pipB2 0/0 100.0 93.9 NP_461706 (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 27357 28535 prgH 0/0 100.0 99.3 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 28560 28802 prgI 0/0 100.0 98.8 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 28821 29126 prgJ 0/0 100.0 99.7 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 29123 29881 prgK 0/0 100.0 99.5 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 13483 13980 sicA 0/0 100.0 99.4 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 20797 21189 sicP 0/0 100.0 99.5 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_97993 cov_15.505671 79280 80290 sifA 0/0 100.0 96.1 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_28 length_65470 cov_13.544236 37250 38200 sifB 0/0 100.0 95.7 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_31 length_56892 cov_19.322487 54570 56762 sinH 0/0 100.0 97.6 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 18142 20199 sipA/sspA 0/0 100.0 99.2 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 13983 15764 sipB/sspB 0/0 100.0 99.5 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 15792 17021 sipC/sspC 0/0 100.0 99.7 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 17092 18123 sipD 0/0 100.0 98.7 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_152416 cov_15.327535 115575 117842 slrP 1/30 98.7 95.3 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_16 length_93408 cov_15.297467 18470 20818 sopA 0/0 100.0 98.1 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_76 length_11117 cov_13.632029 8164 9849 sopB/sigD 0/0 100.0 97.6 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_149413 cov_18.312394 38623 39576 sopD 0/0 100.0 98.2 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_66594 cov_15.655002 29403 30362 sopD2 0/0 100.0 92.6 NP_459947 (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_24 length_70283 cov_13.568162 69222 69944 sopE2 0/0 100.0 96.7 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 9632 10543 spaO 0/0 100.0 99.5 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 10533 11207 spaP 0/0 100.0 99.4 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 11233 11493 spaQ 0/0 100.0 99.2 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 11497 12288 spaR 0/0 100.0 99.6 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 12275 13345 spaS 0/0 100.0 99.9 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_52 length_28146 cov_13.233627 7667 8068 spiC/ssaB 0/0 100.0 99.8 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_31672 cov_17.482042 21176 22807 sptP 0/0 100.0 98.4 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_52 length_28146 cov_13.233627 6172 7665 ssaC 0/0 100.0 98.7 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_52 length_28146 cov_13.233627 4980 6191 ssaD 0/0 100.0 98.7 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_52 length_28146 cov_13.233627 4730 4972 ssaE 0/0 100.0 98.8 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 144627 144842 ssaG 0/0 100.0 99.1 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 144359 144586 ssaH 0/0 100.0 99.1 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 144099 144347 ssaI 0/0 100.0 98.4 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 143353 144102 ssaJ 0/0 100.0 98.5 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 142116 142790 ssaK 0/0 100.0 98.8 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 141134 142150 ssaL 0/0 100.0 99.0 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 140708 141076 ssaM 0/0 100.0 98.6 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 137387 138688 ssaN 0/0 100.0 98.5 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 137007 137384 ssaO 0/0 100.0 99.2 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 136652 137026 ssaP 0/0 100.0 98.7 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 135703 136671 ssaQ 0/0 100.0 98.6 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 134988 135635 ssaR 0/0 100.0 99.5 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 134725 134991 ssaS 0/0 100.0 100.0 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 133945 134724 ssaT 0/0 100.0 98.1 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 132890 133948 ssaU 0/0 100.0 97.7 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 138678 140723 ssaV 0/0 100.0 99.1 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_52 length_28146 cov_13.233627 3074 3547 sscA 0/0 100.0 97.7 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_52 length_28146 cov_13.233627 109 543 sscB 0/0 100.0 99.8 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_52 length_28146 cov_13.233627 4141 4467 sseA 0/0 100.0 98.8 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_52 length_28146 cov_13.233627 3544 4134 sseB 0/0 100.0 96.6 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_52 length_28146 cov_13.233627 1617 3071 sseC 0/0 100.0 95.7 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_52 length_28146 cov_13.233627 1014 1601 sseD 0/0 100.0 95.4 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_52 length_28146 cov_13.233627 595 1011 sseE 0/0 100.0 98.3 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_146295 cov_14.241989 144935 145624 sseG 0/0 100.0 97.7 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_58 length_25477 cov_12.839250 904 2130 sseJ 0/0 100.0 96.4 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_41 length_32722 cov_20.918914 17862 18872 sseK1 0/0 100.0 99.2 NP_463026 (sseK1) type III secretion system effector SseK1 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_81721 cov_15.300010 3571 4617 sseK2 0/0 100.0 99.1 NP_461081 (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_28 length_65470 cov_13.544236 14577 15209 steA 0/0 100.0 97.5 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_28 length_65470 cov_13.544236 64690 65091 steB 0/0 100.0 97.0 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
MS0499
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_35 length_43133 cov_20.445473 39967 40875 avrA 0/0 100.0 99.5 NP_461786 (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_236778 cov_16.771660 57004 57459 csgA 0/0 100.0 98.7 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_236778 cov_16.771660 56507 56962 csgB 0/0 100.0 100.0 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_236778 cov_16.771660 57521 57847 csgC 0/0 100.0 100.0 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_236778 cov_16.771660 55102 55752 csgD 0/0 100.0 99.2 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_236778 cov_16.771660 54702 55097 csgE 0/0 100.0 100.0 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_236778 cov_16.771660 54259 54675 csgF 0/0 100.0 99.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_236778 cov_16.771660 53399 54232 csgG 0/0 100.0 99.6 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403701 cov_18.990123 268986 269678 fimC 0/0 100.0 98.7 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403701 cov_18.990123 269709 272321 fimD 0/0 100.0 98.9 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403701 cov_18.990123 273353 273871 fimF 0/0 100.0 98.3 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403701 cov_18.990123 272336 273343 fimH 0/0 100.0 97.9 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403701 cov_18.990123 268409 268942 fimI 0/0 100.0 99.1 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 25231 27288 invA 0/0 100.0 99.6 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 24800 25207 invB 0/0 100.0 99.3 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 23508 24803 invC 0/0 100.0 99.4 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 27313 28431 invE 0/0 100.0 99.7 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 30113 30763 invF 0/0 100.0 99.7 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 28428 30116 invG 0/0 100.0 99.5 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 31221 31664 invH 0/0 100.0 99.3 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 23087 23530 invI 0/0 100.0 99.3 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 22077 23087 invJ 0/0 100.0 99.3 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_414499 cov_22.624224 220921 221457 lpfA 0/0 100.0 96.8 NP_462541 (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_414499 cov_22.624224 220139 220837 lpfB 0/0 100.0 98.7 NP_462540 (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_414499 cov_22.624224 217588 220116 lpfC 0/0 100.0 98.5 NP_462539 (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_414499 cov_22.624224 215973 216500 lpfE 0/0 100.0 99.2 NP_462537 (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_414499 cov_22.624224 369097 371823 mgtB 0/0 100.0 98.8 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_414499 cov_22.624224 372043 372738 mgtC 0/0 100.0 99.0 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_37 length_34757 cov_18.762720 16366 17262 mig-14 0/0 100.0 97.7 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_414499 cov_22.624224 362317 365184 misL 3/30 99.5 97.4 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 1257 1856 orgA 0/0 100.0 99.5 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 610 1300 orgB 1/10 100.0 97.5 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 161 613 orgC 0/0 100.0 98.0 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_19 length_79531 cov_16.139099 39460 40335 pipB 0/0 100.0 98.7 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_37 length_34757 cov_18.762720 13573 14625 pipB2 0/0 100.0 93.9 NP_461706 (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 3174 4352 prgH 0/0 100.0 99.3 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 2907 3149 prgI 0/0 100.0 98.8 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 2583 2888 prgJ 0/0 100.0 99.7 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 1828 2586 prgK 0/0 100.0 99.5 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 17729 18226 sicA 0/0 100.0 99.4 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 10520 10912 sicP 0/0 100.0 99.5 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_236778 cov_16.771660 135221 136231 sifA 0/0 100.0 96.1 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_247095 cov_15.109630 143625 144575 sifB 0/0 100.0 95.7 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_266139 cov_18.717648 91 2283 sinH 0/0 100.0 97.6 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 11510 13567 sipA/sspA 0/0 100.0 99.2 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 15945 17726 sipB/sspB 0/0 100.0 99.5 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 14688 15917 sipC/sspC 0/0 100.0 99.7 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 13586 14617 sipD 0/0 100.0 98.7 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_23 length_73619 cov_16.970201 34575 36842 slrP 1/30 98.7 95.3 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_32 length_50055 cov_17.007871 24955 27303 sopA 0/0 100.0 98.1 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_19 length_79531 cov_16.139099 36436 38121 sopB/sigD 0/0 100.0 97.6 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 74881 75834 sopD 0/0 100.0 98.2 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_25 length_66396 cov_17.237381 29148 30107 sopD2 0/0 100.0 92.6 NP_459947 (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_162718 cov_15.360813 93653 94375 sopE2 0/0 100.0 96.7 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 21166 22077 spaO 0/0 100.0 99.5 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 20502 21176 spaP 0/0 100.0 99.4 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 20216 20476 spaQ 0/0 100.0 99.2 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 19421 20212 spaR 0/0 100.0 99.6 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 18364 19434 spaS 0/0 100.0 99.9 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_22 length_77226 cov_15.706935 69199 69600 spiC/ssaB 0/0 100.0 99.8 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.659679 8902 10533 sptP 0/0 100.0 98.4 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_22 length_77226 cov_15.706935 69602 71095 ssaC 0/0 100.0 98.7 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_22 length_77226 cov_15.706935 71076 72287 ssaD 0/0 100.0 98.7 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_22 length_77226 cov_15.706935 72295 72537 ssaE 0/0 100.0 98.8 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 1455 1670 ssaG 0/0 100.0 99.1 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 1711 1938 ssaH 0/0 100.0 99.1 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 1950 2198 ssaI 0/0 100.0 98.4 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 2195 2944 ssaJ 0/0 100.0 98.5 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 3507 4181 ssaK 0/0 100.0 98.8 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 4147 5163 ssaL 0/0 100.0 99.0 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 5221 5589 ssaM 0/0 100.0 98.6 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 7609 8910 ssaN 0/0 100.0 98.5 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 8913 9290 ssaO 0/0 100.0 99.2 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 9271 9645 ssaP 0/0 100.0 98.7 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 9626 10594 ssaQ 0/0 100.0 98.6 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 10662 11309 ssaR 0/0 100.0 99.5 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 11306 11572 ssaS 0/0 100.0 100.0 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 11573 12352 ssaT 0/0 100.0 98.1 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 12349 13407 ssaU 0/0 100.0 97.7 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 5574 7619 ssaV 0/0 100.0 99.1 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_22 length_77226 cov_15.706935 73720 74193 sscA 0/0 100.0 97.7 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_22 length_77226 cov_15.706935 76724 77158 sscB 0/0 100.0 99.8 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_22 length_77226 cov_15.706935 72800 73126 sseA 0/0 100.0 98.8 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_22 length_77226 cov_15.706935 73133 73723 sseB 0/0 100.0 96.6 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_22 length_77226 cov_15.706935 74196 75650 sseC 0/0 100.0 95.7 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_22 length_77226 cov_15.706935 75666 76253 sseD 0/0 100.0 95.4 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_22 length_77226 cov_15.706935 76256 76672 sseE 0/0 100.0 98.3 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_62916 cov_16.095972 673 1362 sseG 0/0 100.0 97.7 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_247095 cov_15.109630 172737 173963 sseJ 0/0 100.0 96.4 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_53 length_18864 cov_21.285425 151 1161 sseK1 0/0 100.0 99.2 NP_463026 (sseK1) type III secretion system effector SseK1 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_113058 cov_16.737371 108117 109163 sseK2 0/0 100.0 99.1 NP_461081 (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_247095 cov_15.109630 120952 121584 steA 0/0 100.0 97.5 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_247095 cov_15.109630 171065 171466 steB 0/0 100.0 97.0 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_247095 cov_15.109630 245680 247053 steC 0/0 100.0 95.8 NP_460656 (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
MS0500
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_13 length_144214 cov_21.738103 2459 3367 avrA 0/0 100.0 99.7 NP_461786 (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_189929 cov_19.391366 954 1409 csgA 0/0 100.0 98.9 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_189929 cov_19.391366 457 912 csgB 0/0 100.0 99.6 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_189929 cov_19.391366 1471 1797 csgC 0/0 100.0 100.0 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_55592 cov_21.606941 54643 55293 csgD 0/0 100.0 99.7 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_55592 cov_21.606941 54243 54638 csgE 0/0 100.0 100.0 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_55592 cov_21.606941 53800 54216 csgF 0/0 100.0 100.0 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_55592 cov_21.606941 52940 53773 csgG 0/0 100.0 99.6 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_438900 cov_21.348599 285322 286014 fimC 0/0 100.0 99.0 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_438900 cov_21.348599 286045 288657 fimD 0/0 100.0 99.0 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_438900 cov_21.348599 289689 290207 fimF 0/0 100.0 99.2 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_438900 cov_21.348599 288672 289679 fimH 0/0 100.0 98.2 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_438900 cov_21.348599 284745 285278 fimI 0/0 100.0 98.3 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 25176 27233 invA 0/0 100.0 99.4 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 24745 25152 invB 0/0 100.0 99.0 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 23453 24748 invC 0/0 100.0 99.8 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 27258 28376 invE 0/0 100.0 99.7 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 30058 30708 invF 0/0 100.0 100.0 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 28373 30061 invG 0/0 100.0 99.3 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 31164 31607 invH 0/0 100.0 98.7 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 23032 23475 invI 0/0 100.0 100.0 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 22022 23032 invJ 0/0 100.0 99.2 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_228394 cov_24.336886 102 638 lpfA 0/0 100.0 99.8 NP_462541 (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_228394 cov_24.336886 723 1421 lpfB 0/0 100.0 99.9 NP_462540 (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_228394 cov_24.336886 1444 3972 lpfC 0/0 100.0 99.2 NP_462539 (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_228394 cov_24.336886 3990 5069 lpfD 0/0 100.0 99.6 NP_462538 (lpfD) long polar fimbrial protein LpfD [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_228394 cov_24.336886 5075 5602 lpfE 0/0 100.0 99.8 NP_462537 (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_16 length_123183 cov_24.632192 77773 80499 mgtB 0/0 100.0 99.0 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_16 length_123183 cov_24.632192 80719 81414 mgtC 0/0 100.0 98.6 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_144214 cov_21.738103 82645 83541 mig-14 0/0 100.0 98.1 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_16 length_123183 cov_24.632192 71053 73920 misL 0/0 100.0 99.4 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 1200 1799 orgA 0/0 100.0 99.8 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 563 1243 orgB 0/0 100.0 99.8 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 114 566 orgC 0/0 100.0 99.3 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_89962 cov_18.846830 33424 34299 pipB 0/0 100.0 98.6 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_144214 cov_21.738103 85283 86335 pipB2 0/0 100.0 99.5 NP_461706 (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 3117 4295 prgH 0/0 100.0 99.6 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 2850 3092 prgI 0/0 100.0 100.0 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 2526 2831 prgJ 0/0 100.0 99.0 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 1771 2529 prgK 0/0 100.0 99.6 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_245745 cov_21.007841 106468 113775 ratB 0/0 100.0 99.0 NP_461449 (ratB) putative outer membrane protein [RatB (VF0399)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 17674 18171 sicA 0/0 100.0 99.6 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 10465 10857 sicP 0/0 100.0 99.8 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_189929 cov_19.391366 79154 80164 sifA 0/0 100.0 99.8 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 65745 66695 sifB 0/0 100.0 97.7 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 11455 13512 sipA/sspA 0/0 100.0 99.8 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 15890 17671 sipB/sspB 0/0 100.0 99.7 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 14633 15862 sipC/sspC 0/0 100.0 99.5 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 13531 14562 sipD 0/0 100.0 99.8 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_24 length_65031 cov_19.515854 33913 36167 slrP 3/43 98.1 96.3 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_172957 cov_18.373234 45563 46096 sodCI 0/0 100.0 100.0 NP_460019 (sodCI) Gifsy-2 prophage: superoxide dismutase precursor (Cu-Zn) [SodCI (VF0109)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_197194 cov_20.326904 194356 196704 sopA 0/0 100.0 99.2 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_89962 cov_18.846830 35205 36890 sopB/sigD 0/0 100.0 99.6 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_19 length_109850 cov_22.932521 108826 109779 sopD 0/0 100.0 98.1 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_163604 cov_19.603204 111954 112913 sopD2 0/0 100.0 99.4 NP_459947 (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_172957 cov_18.373234 20092 20814 sopE2 0/0 100.0 99.9 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 21111 22022 spaO 0/0 100.0 98.9 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 20447 21121 spaP 0/0 100.0 99.0 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 20161 20421 spaQ 0/0 100.0 100.0 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 19366 20157 spaR 0/0 100.0 99.4 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 18309 19379 spaS 0/0 100.0 99.9 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 273831 274232 spiC/ssaB 0/0 100.0 99.5 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_35 length_33794 cov_21.304096 8847 10478 sptP 0/0 100.0 99.6 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 272336 273829 ssaC 0/0 100.0 98.9 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 271144 272355 ssaD 0/0 100.0 99.5 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 270894 271136 ssaE 0/0 100.0 100.0 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 264540 264755 ssaG 0/0 100.0 99.5 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 264272 264499 ssaH 0/0 100.0 100.0 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 264012 264260 ssaI 0/0 100.0 100.0 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 263266 264015 ssaJ 0/0 100.0 98.8 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 262029 262703 ssaK 0/0 100.0 99.6 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 261047 262063 ssaL 0/0 100.0 99.4 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 260621 260989 ssaM 0/0 100.0 99.7 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 257300 258601 ssaN 0/0 100.0 98.6 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 256920 257297 ssaO 0/0 100.0 99.7 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 256565 256939 ssaP 0/0 100.0 99.5 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 255616 256584 ssaQ 0/0 100.0 98.0 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 254901 255548 ssaR 0/0 100.0 98.9 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 254638 254904 ssaS 0/0 100.0 99.6 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 253858 254637 ssaT 0/0 100.0 98.8 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 252803 253861 ssaU 0/0 100.0 99.2 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 258591 260636 ssaV 0/0 100.0 99.8 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 269298 269771 sscA 0/0 100.0 99.2 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 266333 266767 sscB 0/0 100.0 100.0 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 270365 270691 sseA 0/0 100.0 99.7 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 269768 270358 sseB 0/0 100.0 100.0 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 267841 269295 sseC 0/0 100.0 99.1 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 267238 267825 sseD 0/0 100.0 100.0 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 266819 267235 sseE 0/0 100.0 99.8 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 265535 266317 sseF 0/0 100.0 99.2 NP_460369 (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 264849 265538 sseG 0/0 100.0 99.4 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_163604 cov_19.603204 160554 161522 sseI/srfH 0/0 100.0 99.7 NP_460026 (sseI/srfH) type III secretion system effector SseI/SrfH cysteine protease [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 31625 32851 sseJ 0/0 100.0 99.7 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_155456 cov_20.657694 113199 114152 sseL 0/0 100.0 96.5 NP_461229 (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_197194 cov_20.326904 4336 6702 sspH2 0/0 100.0 99.7 NP_461184 (sspH2) type III secretion system effector SspH2 E3 ubiquitin ligase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 88719 89351 steA 0/0 100.0 97.5 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.408745 34122 34522 steB 1/1 99.8 99.8 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_191046 cov_18.049618 48393 49766 steC 0/0 100.0 99.4 NP_460656 (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
MS0501
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_106 length_3491 cov_10.610583 2503 3312 cdtB 0/0 100.0 100.0 NP_456275 (cdtB) cytolethal distending toxin B [CdtB (VF0407)] [Salmonella enterica subsp. enterica serovar Typhi str. CT18]
NODE_6 length_135378 cov_17.004591 101888 102343 csgA 0/0 100.0 98.9 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_135378 cov_17.004591 102385 102840 csgB 0/0 100.0 99.3 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_135378 cov_17.004591 101500 101826 csgC 0/0 100.0 99.4 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_135378 cov_17.004591 103595 104245 csgD 0/0 100.0 99.1 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_135378 cov_17.004591 104250 104645 csgE 0/0 100.0 99.5 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_135378 cov_17.004591 104672 105088 csgF 0/0 100.0 100.0 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_135378 cov_17.004591 105115 105948 csgG 0/0 100.0 99.6 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_130137 cov_19.524329 15129 15821 fimC 0/0 100.0 98.4 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_130137 cov_19.524329 12486 15098 fimD 0/0 100.0 98.7 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_130137 cov_19.524329 10937 11454 fimF 0/0 99.8 98.5 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_130137 cov_19.524329 11464 12471 fimH 0/0 100.0 98.2 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_130137 cov_19.524329 15865 16398 fimI 0/0 100.0 99.1 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 8044 10101 invA 0/0 100.0 99.4 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 10125 10532 invB 0/0 100.0 99.3 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 10529 11824 invC 0/0 100.0 99.2 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 6901 8019 invE 0/0 100.0 99.3 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 4569 5219 invF 0/0 100.0 99.5 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 5216 6904 invG 0/0 100.0 98.9 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 3669 4112 invH 0/0 100.0 98.7 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 11802 12245 invI 0/0 100.0 99.5 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 12245 13255 invJ 0/0 100.0 98.7 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_55323 cov_23.117780 50738 53464 mgtB 0/0 100.0 98.7 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_55323 cov_23.117780 49822 50517 mgtC 0/0 100.0 98.6 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_98963 cov_19.695971 81703 82599 mig-14 0/0 100.0 97.2 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_94 length_6029 cov_19.819722 1179 4031 misL 1/15 99.5 97.6 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 33467 34066 orgA 0/0 100.0 99.5 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 34023 34713 orgB 1/10 100.0 98.0 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 34710 35162 orgC 0/0 100.0 98.7 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_44 length_36329 cov_17.097647 241 1116 pipB 0/0 100.0 98.5 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 30971 32149 prgH 0/0 100.0 99.2 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 32174 32416 prgI 0/0 100.0 100.0 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 32435 32740 prgJ 0/0 100.0 99.7 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 32737 33495 prgK 0/0 100.0 99.6 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 17106 17603 sicA 0/0 100.0 99.4 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 24411 24803 sicP 0/0 100.0 99.2 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_135378 cov_17.004591 16778 17788 sifA 0/0 100.0 96.7 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_51 length_31448 cov_14.845822 270 1220 sifB 0/0 100.0 95.7 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_79 length_14674 cov_20.241149 131 2323 sinH 0/0 100.0 95.6 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 21756 23813 sipA/sspA 0/0 100.0 98.3 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 17606 19387 sipB/sspB 0/0 100.0 99.4 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 19415 20644 sipC/sspC 0/0 100.0 99.5 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 20715 21737 sipD 3/11 99.0 90.3 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_93603 cov_16.464536 58804 61071 slrP 2/30 98.7 94.6 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_17 length_80241 cov_17.801158 60647 62995 sopA 0/0 100.0 97.2 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_86 length_10509 cov_16.241187 8158 9843 sopB/sigD 0/0 100.0 98.2 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_29 length_53692 cov_20.885112 40635 41588 sopD 0/0 100.0 97.7 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_34888 cov_15.027876 20265 20987 sopE2 0/0 100.0 98.1 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 13255 14166 spaO 0/0 100.0 98.7 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 14156 14830 spaP 0/0 100.0 98.7 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 14856 15116 spaQ 0/0 100.0 99.6 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 15120 15911 spaR 0/0 100.0 99.0 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 15898 16968 spaS 0/0 100.0 98.5 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 123 524 spiC/ssaB 0/0 100.0 99.2 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_35322 cov_18.081688 24790 26421 sptP 0/0 100.0 97.6 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 526 2019 ssaC 0/0 100.0 98.5 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 2000 3211 ssaD 0/0 100.0 98.2 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 3219 3461 ssaE 0/0 100.0 99.2 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 9600 9815 ssaG 0/0 100.0 100.0 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 9856 10083 ssaH 0/0 100.0 99.6 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 10095 10343 ssaI 0/0 100.0 98.8 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 10340 11089 ssaJ 0/0 100.0 98.1 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 11652 12326 ssaK 0/0 100.0 98.5 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 12292 13308 ssaL 0/0 100.0 99.0 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 13366 13734 ssaM 0/0 100.0 97.0 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 15754 17055 ssaN 0/0 100.0 98.8 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 17058 17435 ssaO 0/0 100.0 98.2 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 17416 17790 ssaP 0/0 100.0 99.5 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 17771 18739 ssaQ 0/0 100.0 98.1 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 18807 19454 ssaR 0/0 100.0 98.9 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 19451 19717 ssaS 0/0 100.0 99.2 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 19718 20497 ssaT 0/0 100.0 97.6 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 13719 15764 ssaV 0/0 100.0 99.0 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 4584 5057 sscA 0/0 100.0 97.5 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 7588 8022 sscB 0/0 100.0 99.5 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 3664 3990 sseA 0/0 100.0 99.7 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 3997 4587 sseB 0/0 100.0 97.1 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 5060 6514 sseC 0/0 100.0 97.2 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 6530 7117 sseD 0/0 100.0 96.9 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 7120 7536 sseE 0/0 100.0 99.3 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 8038 8820 sseF 0/0 100.0 98.5 NP_460369 (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_69 length_20602 cov_15.086593 8817 9506 sseG 0/0 100.0 96.7 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_51 length_31448 cov_14.845822 29381 30607 sseJ 0/0 100.0 96.8 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_40 length_36904 cov_16.683008 21688 22320 steA 0/0 100.0 94.5 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_51 length_31448 cov_14.845822 27709 28110 steB 0/0 100.0 97.5 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_92 length_7171 cov_12.926462 5748 7121 steC 0/0 100.0 95.0 NP_460656 (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
MS0502
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_14 length_154089 cov_19.931152 2391 3299 avrA 0/0 100.0 99.6 NP_461786 (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 1041 1496 csgA 0/0 100.0 99.1 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 544 999 csgB 0/0 100.0 99.8 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 1558 1884 csgC 0/0 100.0 99.7 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_158383 cov_15.601702 192 842 csgD 0/0 100.0 99.7 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_158383 cov_15.601702 847 1242 csgE 0/0 100.0 100.0 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_158383 cov_15.601702 1269 1685 csgF 0/0 100.0 99.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_158383 cov_15.601702 1712 2545 csgG 0/0 100.0 99.5 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_311708 cov_19.745119 114309 115001 fimC 0/0 100.0 98.4 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_311708 cov_19.745119 115032 117644 fimD 0/0 100.0 98.8 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_311708 cov_19.745119 118676 119194 fimF 0/0 100.0 99.4 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_311708 cov_19.745119 117659 118666 fimH 0/0 100.0 98.2 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_311708 cov_19.745119 113732 114265 fimI 0/0 100.0 98.5 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 167959 170016 invA 0/0 100.0 99.2 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 170040 170447 invB 0/0 100.0 99.0 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 170444 171739 invC 0/0 100.0 99.2 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 166816 167934 invE 0/0 100.0 99.4 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 164484 165134 invF 0/0 100.0 98.9 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 165131 166819 invG 0/0 100.0 99.3 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 163583 164026 invH 0/0 100.0 98.9 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 171717 172160 invI 0/0 100.0 99.5 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 172160 173170 invJ 0/0 100.0 99.2 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_17 length_101920 cov_23.992671 50725 53451 mgtB 0/0 100.0 99.4 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_17 length_101920 cov_23.992671 53671 54366 mgtC 0/0 100.0 99.0 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_154089 cov_19.931152 82570 83466 mig-14 0/0 100.0 97.8 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_17 length_101920 cov_23.992671 43944 46811 misL 0/0 100.0 99.2 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 193391 193990 orgA 0/0 100.0 100.0 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 193947 194627 orgB 0/0 100.0 99.7 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 194624 195076 orgC 0/0 100.0 99.3 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_158383 cov_15.601702 52697 53572 pipB 0/0 100.0 98.6 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_154089 cov_19.931152 85208 86260 pipB2 0/0 100.0 98.3 NP_461706 (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 190895 192073 prgH 0/0 100.0 99.6 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 192098 192340 prgI 0/0 100.0 100.0 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 192359 192664 prgJ 0/0 100.0 99.7 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 192661 193419 prgK 0/0 100.0 99.9 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_360607 cov_17.370284 107423 113551 shdA 5/13 100.0 94.2 NP_461448 (shdA) AIDA autotransporter-like protein [ShdA (VF0398)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 177021 177518 sicA 0/0 100.0 99.2 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 184335 184727 sicP 0/0 100.0 100.0 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 79252 80262 sifA 0/0 100.0 99.8 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 458988 459938 sifB 0/0 100.0 97.2 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_360607 cov_17.370284 97419 99611 sinH 0/0 100.0 98.3 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 181680 183737 sipA/sspA 0/0 100.0 99.8 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 177521 179302 sipB/sspB 0/0 100.0 99.2 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 179330 180559 sipC/sspC 0/0 100.0 99.6 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 180630 181661 sipD 0/0 100.0 99.8 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_169440 cov_15.786000 119616 121883 slrP 2/30 98.7 96.9 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_395533 cov_15.228525 19754 22102 sopA 0/0 100.0 99.3 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_158383 cov_15.601702 50106 51791 sopB/sigD 0/0 100.0 99.8 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 121150 122103 sopD 0/0 100.0 98.6 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_158383 cov_15.601702 129223 130182 sopD2 0/0 100.0 99.7 NP_459947 (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_395533 cov_15.228525 232459 233181 sopE2 0/0 100.0 99.7 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 173170 174081 spaO 0/0 100.0 99.0 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 174071 174745 spaP 0/0 100.0 99.1 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 174771 175031 spaQ 0/0 100.0 100.0 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 175035 175826 spaR 0/0 100.0 99.8 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 175813 176883 spaS 0/0 100.0 100.0 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 247342 247741 spiC/ssaB 0/0 99.5 99.8 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_195208 cov_20.450398 184714 186345 sptP 0/0 100.0 99.8 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 247743 249236 ssaC 0/0 100.0 99.0 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 249217 250428 ssaD 0/0 100.0 99.2 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 250436 250678 ssaE 0/0 100.0 100.0 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 256877 257092 ssaG 0/0 100.0 100.0 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 257133 257360 ssaH 0/0 100.0 99.6 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 257372 257620 ssaI 0/0 100.0 100.0 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 257617 258366 ssaJ 0/0 100.0 99.3 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 258929 259603 ssaK 0/0 100.0 99.6 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 259569 260585 ssaL 0/0 100.0 99.1 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 260643 261011 ssaM 0/0 100.0 99.7 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 263031 264332 ssaN 0/0 100.0 99.5 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 264335 264712 ssaO 0/0 100.0 100.0 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 264693 265067 ssaP 0/0 100.0 99.7 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 265048 266016 ssaQ 0/0 100.0 98.5 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 266084 266731 ssaR 0/0 100.0 98.9 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 266728 266994 ssaS 0/0 100.0 99.6 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 266995 267774 ssaT 0/0 100.0 98.7 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 267771 268829 ssaU 0/0 100.0 99.2 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 260996 263041 ssaV 0/0 100.0 99.5 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 251861 252334 sscA 0/0 100.0 98.9 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 254865 255299 sscB 0/0 100.0 100.0 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 250941 251267 sseA 0/0 100.0 99.7 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 251274 251864 sseB 0/0 100.0 100.0 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 252337 253791 sseC 0/0 100.0 98.1 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 253807 254394 sseD 0/0 100.0 97.5 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 254397 254813 sseE 0/0 100.0 98.8 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 255315 256097 sseF 0/0 100.0 99.4 NP_460369 (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 256094 256783 sseG 0/0 100.0 99.3 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 488101 489327 sseJ 0/0 100.0 99.4 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_163065 cov_16.743160 105636 106682 sseK2 0/0 100.0 100.0 NP_461081 (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_360607 cov_17.370284 344329 345282 sseL 0/0 100.0 97.6 NP_461229 (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_163065 cov_16.743160 4544 6910 sspH2 0/0 100.0 99.7 NP_461184 (sspH2) type III secretion system effector SspH2 E3 ubiquitin ligase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 436331 436950 steA 2/15 97.8 96.2 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558193 cov_14.693909 486429 486830 steB 0/0 100.0 99.8 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_30 length_12556 cov_10.552096 6287 7208 tcpC 2/2 99.8 95.9 NP_754290 (tcpC) Tir domain containing protein TcpC [TcpC (VF0413)] [Escherichia coli CFT073]
MS0503
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_6 length_226261 cov_17.488356 150167 151075 avrA 0/0 100.0 99.6 NP_461786 (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.118781 245541 245996 csgA 0/0 100.0 99.1 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.118781 246038 246493 csgB 0/0 100.0 99.8 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.118781 245153 245479 csgC 0/0 100.0 99.7 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.118781 247248 247898 csgD 0/0 100.0 99.7 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.118781 247903 248298 csgE 0/0 100.0 100.0 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.118781 248325 248741 csgF 0/0 100.0 99.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.118781 248768 249601 csgG 0/0 100.0 99.5 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_326616 cov_17.860023 114326 115018 fimC 0/0 100.0 98.4 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_326616 cov_17.860023 115049 117661 fimD 0/0 100.0 98.8 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_326616 cov_17.860023 118693 119211 fimF 0/0 100.0 99.4 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_326616 cov_17.860023 117676 118683 fimH 0/0 100.0 98.2 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_326616 cov_17.860023 113749 114282 fimI 0/0 100.0 98.5 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 178668 180725 invA 0/0 100.0 99.2 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 178237 178644 invB 0/0 100.0 99.0 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 176945 178240 invC 0/0 100.0 99.2 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 180750 181868 invE 0/0 100.0 99.4 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 183550 184200 invF 0/0 100.0 98.9 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 181865 183553 invG 0/0 100.0 99.3 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 184658 185101 invH 0/0 100.0 98.9 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 176524 176967 invI 0/0 100.0 99.5 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 175514 176524 invJ 0/0 100.0 99.2 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_19 length_101386 cov_21.265537 48470 51196 mgtB 0/0 100.0 99.4 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_19 length_101386 cov_21.265537 47555 48250 mgtC 0/0 100.0 99.0 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 70000 70896 mig-14 0/0 100.0 97.8 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_19 length_101386 cov_21.265537 55110 57977 misL 0/0 100.0 99.2 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 154694 155293 orgA 0/0 100.0 100.0 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 154057 154737 orgB 0/0 100.0 99.7 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 153608 154060 orgC 0/0 100.0 99.3 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.118781 299753 300628 pipB 0/0 100.0 98.6 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 67206 68258 pipB2 0/0 100.0 98.3 NP_461706 (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 156611 157789 prgH 0/0 100.0 99.6 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 156344 156586 prgI 0/0 100.0 100.0 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 156020 156325 prgJ 0/0 100.0 99.7 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 155265 156023 prgK 0/0 100.0 99.9 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_301022 cov_16.408225 107423 113551 shdA 5/13 100.0 94.2 NP_461448 (shdA) AIDA autotransporter-like protein [ShdA (VF0398)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 171166 171663 sicA 0/0 100.0 99.2 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 163957 164349 sicP 0/0 100.0 100.0 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.118781 166775 167785 sifA 0/0 100.0 99.8 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 190025 190975 sifB 0/0 100.0 97.2 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_301022 cov_16.408225 97419 99611 sinH 0/0 100.0 98.3 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 164947 167004 sipA/sspA 0/0 100.0 99.8 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 169382 171163 sipB/sspB 0/0 100.0 99.2 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 168125 169354 sipC/sspC 0/0 100.0 99.6 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 167023 168054 sipD 0/0 100.0 99.8 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_169408 cov_14.571736 119584 121851 slrP 2/30 98.7 96.9 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_46382 cov_14.923230 26073 28421 sopA 0/0 100.0 99.3 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.118781 297162 298847 sopB/sigD 0/0 100.0 99.8 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_16 length_122553 cov_18.320880 121272 122225 sopD 0/0 100.0 98.6 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.118781 376279 377238 sopD2 0/0 100.0 99.7 NP_459947 (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_8 length_196298 cov_14.571940 126303 127025 sopE2 0/0 100.0 99.7 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 174603 175514 spaO 0/0 100.0 99.0 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 173939 174613 spaP 0/0 100.0 99.1 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 173653 173913 spaQ 0/0 100.0 100.0 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 172858 173649 spaR 0/0 100.0 99.8 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 171801 172871 spaS 0/0 100.0 100.0 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 402408 402807 spiC/ssaB 0/0 99.5 99.8 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226261 cov_17.488356 162339 163970 sptP 0/0 100.0 99.8 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 400913 402406 ssaC 0/0 100.0 99.0 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 399721 400932 ssaD 0/0 100.0 99.2 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 399471 399713 ssaE 0/0 100.0 100.0 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 393057 393272 ssaG 0/0 100.0 100.0 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 392789 393016 ssaH 0/0 100.0 99.6 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 392529 392777 ssaI 0/0 100.0 100.0 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 391783 392532 ssaJ 0/0 100.0 99.3 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 390546 391220 ssaK 0/0 100.0 99.6 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 389564 390580 ssaL 0/0 100.0 99.1 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 389138 389506 ssaM 0/0 100.0 99.7 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 385817 387118 ssaN 0/0 100.0 99.5 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 385437 385814 ssaO 0/0 100.0 100.0 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 385082 385456 ssaP 0/0 100.0 99.7 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 384133 385101 ssaQ 0/0 100.0 98.5 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 383418 384065 ssaR 0/0 100.0 98.9 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 383155 383421 ssaS 0/0 100.0 99.6 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 382375 383154 ssaT 0/0 100.0 98.7 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 381320 382378 ssaU 0/0 100.0 99.2 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 387108 389153 ssaV 0/0 100.0 99.5 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 397815 398288 sscA 0/0 100.0 98.9 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 394850 395284 sscB 0/0 100.0 100.0 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 398882 399208 sseA 0/0 100.0 99.7 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 398285 398875 sseB 0/0 100.0 100.0 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 396358 397812 sseC 0/0 100.0 98.1 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 395755 396342 sseD 0/0 100.0 97.5 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 395336 395752 sseE 0/0 100.0 98.8 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 394052 394834 sseF 0/0 100.0 99.4 NP_460369 (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 393366 394055 sseG 0/0 100.0 99.3 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 160636 161862 sseJ 0/0 100.0 99.4 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_163278 cov_15.519641 105636 106682 sseK2 0/0 100.0 99.9 NP_461081 (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_85728 cov_15.998061 43211 44164 sseL 0/0 100.0 97.6 NP_461229 (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_163278 cov_15.519641 4544 6910 sspH2 0/0 100.0 99.7 NP_461184 (sspH2) type III secretion system effector SspH2 E3 ubiquitin ligase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 213013 213632 steA 2/15 97.8 96.2 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 163133 163534 steB 0/0 100.0 99.8 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.500407 91596 92969 steC 0/0 100.0 99.3 NP_460656 (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_37 length_4319 cov_8.693225 849 1770 tcpC 2/2 99.8 95.9 NP_754290 (tcpC) Tir domain containing protein TcpC [TcpC (VF0413)] [Escherichia coli CFT073]
MS0504
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_18 length_67170 cov_16.687171 2423 3330 avrA 1/1 99.9 99.8 NP_461786 (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206250 cov_13.468599 93875 94330 csgA 0/0 100.0 100.0 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206250 cov_13.468599 93378 93833 csgB 0/0 100.0 100.0 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206250 cov_13.468599 94392 94718 csgC 0/0 100.0 100.0 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206250 cov_13.468599 91973 92623 csgD 0/0 100.0 99.5 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206250 cov_13.468599 91573 91968 csgE 0/0 100.0 100.0 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206250 cov_13.468599 91130 91546 csgF 0/0 100.0 100.0 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206250 cov_13.468599 90270 91103 csgG 0/0 100.0 99.5 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_86138 cov_15.042436 9357 10049 fimC 0/0 100.0 99.4 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_86138 cov_15.042436 6714 9326 fimD 0/0 100.0 98.7 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_86138 cov_15.042436 5164 5682 fimF 0/0 100.0 98.7 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_86138 cov_15.042436 5692 6699 fimH 0/0 100.0 98.1 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_86138 cov_15.042436 10093 10626 fimI 0/0 100.0 99.4 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 5501 7558 invA 0/0 100.0 99.4 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 7582 7989 invB 0/0 100.0 99.0 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 7986 9281 invC 0/0 100.0 98.8 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 4358 5476 invE 0/0 100.0 99.9 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 2026 2676 invF 0/0 100.0 99.8 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 2673 4361 invG 0/0 100.0 99.2 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 1127 1570 invH 0/0 100.0 99.3 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 9259 9702 invI 0/0 100.0 99.8 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 9702 10712 invJ 0/0 100.0 99.5 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_106 length_11850 cov_21.737269 11207 11743 lpfA 0/0 100.0 99.8 NP_462541 (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_106 length_11850 cov_21.737269 10424 11122 lpfB 0/0 100.0 99.9 NP_462540 (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_106 length_11850 cov_21.737269 7873 10401 lpfC 0/0 100.0 99.7 NP_462539 (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_106 length_11850 cov_21.737269 6776 7855 lpfD 0/0 100.0 99.9 NP_462538 (lpfD) long polar fimbrial protein LpfD [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_106 length_11850 cov_21.737269 6243 6770 lpfE 0/0 100.0 99.8 NP_462537 (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_94112 cov_18.454094 49389 52115 mgtB 0/0 100.0 99.2 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_94112 cov_18.454094 48474 49169 mgtC 0/0 100.0 99.0 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_85 length_19144 cov_15.209917 15409 16305 mig-14 0/0 100.0 98.9 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_94112 cov_18.454094 56030 58897 misL 0/0 100.0 99.2 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_121 length_6242 cov_14.166476 4446 5045 orgA 0/0 100.0 99.8 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_121 length_6242 cov_14.166476 5002 5682 orgB 0/0 100.0 99.8 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_121 length_6242 cov_14.166476 5679 6131 orgC 0/0 100.0 99.6 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206250 cov_13.468599 39244 40119 pipB 0/0 100.0 99.8 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_85 length_19144 cov_15.209917 18046 19098 pipB2 0/0 100.0 98.2 NP_461706 (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_121 length_6242 cov_14.166476 1950 3128 prgH 0/0 100.0 99.2 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_121 length_6242 cov_14.166476 3153 3395 prgI 0/0 100.0 100.0 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_121 length_6242 cov_14.166476 3414 3719 prgJ 0/0 100.0 100.0 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_121 length_6242 cov_14.166476 3716 4474 prgK 0/0 100.0 99.9 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_96 length_16729 cov_16.041079 232 7539 ratB 2/6 100.0 98.7 NP_461449 (ratB) putative outer membrane protein [RatB (VF0399)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 14563 15060 sicA 0/0 100.0 99.8 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 21877 22269 sicP 0/0 100.0 99.2 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206250 cov_13.468599 172083 173093 sifA 0/0 100.0 100.0 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_95 length_16950 cov_11.997801 73 1023 sifB 0/0 100.0 99.5 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_96 length_16729 cov_16.041079 14442 16634 sinH 0/0 100.0 99.5 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 19222 21279 sipA/sspA 0/0 100.0 99.8 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 15063 16844 sipB/sspB 0/0 100.0 99.2 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 16872 18101 sipC/sspC 0/0 100.0 99.6 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 18172 19203 sipD 0/0 100.0 99.8 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_88493 cov_13.468857 28859 31126 slrP 2/30 98.7 96.8 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_45637 cov_15.527071 18406 20754 sopA 0/0 100.0 99.2 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206250 cov_13.468599 41025 42710 sopB/sigD 0/0 100.0 99.8 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_58 length_28598 cov_11.907731 12286 13008 sopE2 0/0 100.0 99.9 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 10712 11623 spaO 0/0 100.0 99.1 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 11613 12287 spaP 0/0 100.0 99.8 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 12313 12573 spaQ 0/0 100.0 100.0 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 12577 13368 spaR 0/0 100.0 99.4 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 13355 14425 spaS 0/0 100.0 99.8 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 116 517 spiC/ssaB 0/0 100.0 100.0 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.530352 22256 23887 sptP 0/0 100.0 99.8 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 519 2012 ssaC 0/0 100.0 99.0 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 1993 3204 ssaD 0/0 100.0 99.2 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 3212 3454 ssaE 0/0 100.0 100.0 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 9653 9868 ssaG 0/0 100.0 100.0 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 9909 10136 ssaH 0/0 100.0 100.0 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 10148 10396 ssaI 0/0 100.0 99.6 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 10393 11142 ssaJ 0/0 100.0 99.2 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 11705 12379 ssaK 0/0 100.0 99.6 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 12345 13361 ssaL 0/0 100.0 99.1 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 13419 13787 ssaM 0/0 100.0 100.0 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 15807 17108 ssaN 0/0 100.0 98.8 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 17111 17488 ssaO 0/0 100.0 99.7 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 17469 17843 ssaP 0/0 100.0 99.5 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 17824 18792 ssaQ 0/0 100.0 98.1 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 18860 19507 ssaR 0/0 100.0 98.9 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 19504 19770 ssaS 0/0 100.0 99.6 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 19771 20550 ssaT 0/0 100.0 98.5 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 20547 21605 ssaU 0/0 100.0 99.0 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 13772 15817 ssaV 0/0 100.0 99.8 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 4637 5110 sscA 0/0 100.0 98.7 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 7641 8075 sscB 0/0 100.0 100.0 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 3717 4043 sseA 0/0 100.0 99.7 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 4050 4640 sseB 0/0 100.0 99.8 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 5113 6567 sseC 0/0 100.0 99.0 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 6583 7170 sseD 0/0 100.0 100.0 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 7173 7589 sseE 0/0 100.0 100.0 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 8091 8873 sseF 0/0 100.0 99.4 NP_460369 (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.524978 8870 9559 sseG 0/0 100.0 99.6 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_113 length_7838 cov_10.237712 444 1670 sseJ 0/0 100.0 99.4 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_77860 cov_15.308801 28374 29420 sseK2 0/0 100.0 99.7 NP_461081 (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_22 length_59219 cov_14.761084 15331 16284 sseL 0/0 100.0 97.7 NP_461229 (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_102 length_13335 cov_10.864249 7739 9850 sspH1 1/9 100.0 97.9 AAD40326 (sspH1) type III secretion system effector SspH1 E3 ubiquitin ligase [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028s]
NODE_63 length_26799 cov_14.350780 21483 23849 sspH2 0/0 100.0 99.7 NP_461184 (sspH2) type III secretion system effector SspH2 E3 ubiquitin ligase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_79 length_21202 cov_12.277817 6157 6789 steA 0/0 100.0 98.4 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_62 length_27019 cov_12.734828 26366 26767 steB 0/0 100.0 100.0 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]


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Plasmids

The search of plasmid replicons was performed by screening of the draft genome against PlasmidFinder database (A. Carattoli et al., 2014) by using Abricate. Any hit with coverage and/or identity below 90% was removed. To see description of each field, click here.


Select the sample

MS0495
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0496
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0497
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0498
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0499
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0500
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0501
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0502
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0503
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0504
## [1] "No plasmid replicon genes from Plasmidfinder database were found"


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Citation

TORMES has already been submitted to publication. If using TORMES before publication is released, please cite as:


Narciso M. Quijada, David Rodríguez-Lázaro and Marta Hernández. TORMES. (2018) GitHub (https://github.com/nmquijada/tormes/)


Also cite the software and databases that are included in TORMES pipeline:


Software and databases used for special analyisis enabled by -g/--genera Salmonella option: